def test_objects(self):
from orangecontrib.bio import resolwe
gen = resolwe.connect('*****@*****.**', 'anonymous',
'https://dictyexpress.research.bcm.edu', 'genesis')
etc_objects = gen.fetch_etc_objects()
self.assertEqual(type(etc_objects), list) # test if return type is list
self.assertTrue(etc_objects) # test if list is not empty
self.assertEqual(etc_objects[0].type, 'data:etc:') # test if it contains correct objects
# Test experiment D. purpureu
for obj in etc_objects:
if obj.name == 'D. purpureum':
test_experiment = obj
self.assertTrue(test_experiment)
self.assertEqual(test_experiment.id, '564a509e6b13390ffb40d4c8')
json = gen.download_etc_data(test_experiment.id)
self.assertEqual(type(json), dict)
self.assertEqual(len(json["etc"].keys()), 2)
self.assertEqual(len(json["etc"]["genes"].keys()), 12410)
self.assertEqual(json["etc"]["genes"]["DPU_G0071544"], [0.0, 0.1787337345055, 4.20485453935, 20.002575156149998,
19.52080354305, 18.7919080288, 12.38709403699])
self.assertEqual(json["etc"]["timePoints"], [0, 4, 8, 12, 16, 20, 24])
self.assertEqual(type(gen.etc_to_table(json)), Orange.data.table.Table)
def test_objects(self):
gen = resolwe.connect('*****@*****.**', 'anonymous',
'https://dictyexpress.research.bcm.edu',
'genesis')
etc_objects = gen.fetch_etc_objects()
self.assertEqual(type(etc_objects),
list) # test if return type is list
self.assertTrue(etc_objects) # test if list is not empty
self.assertEqual(etc_objects[0].type,
'data:etc:') # test if it contains correct objects
# Test experiment D. purpureu
for obj in etc_objects:
if obj.name == 'D. purpureum':
test_experiment = obj
self.assertTrue(test_experiment)
self.assertEqual(test_experiment.id, '564a509e6b13390ffb40d4c8')
json = gen.download_etc_data(test_experiment.id)
self.assertEqual(type(json), dict)
self.assertEqual(len(json["etc"].keys()), 2)
self.assertEqual(len(json["etc"]["genes"].keys()), 12410)
self.assertEqual(json["etc"]["genes"]["DPU_G0071544"], [
0.0, 0.1787337345055, 4.20485453935, 20.002575156149998,
19.52080354305, 18.7919080288, 12.38709403699
])
self.assertEqual(json["etc"]["timePoints"], [0, 4, 8, 12, 16, 20, 24])
self.assertEqual(type(gen.etc_to_table(json)), Orange.data.table.Table)
def test_login(self):
from orangecontrib.bio import resolwe
email = '*****@*****.**'
password = '******'
url = 'https://dictyexpress.research.bcm.edu'
self.assertTrue(resolwe.connect(email, password, url, 'genesis'))
self.assertRaises(Exception, resolwe.connect, email, "123", url, 'genesis')
self.assertRaises(Exception, resolwe.connect, email, password, 'testUrl', 'genesis')
def test_login(self):
email = '*****@*****.**'
password = '******'
url = 'https://dictyexpress.research.bcm.edu'
self.assertTrue(resolwe.connect(email, password, url, 'genesis'))
self.assertRaises(Exception, resolwe.connect, email, "123", url,
'genesis')
self.assertRaises(Exception, resolwe.connect, email, password,
'testUrl', 'genesis')
def connect(self):
self.res = None
self.error(1)
self.reset()
self.handle_commit_button(False)
self.handle_cache_button(False)
if self.username and self.password:
try:
self.res = resolwe.connect(self.username, self.password, self.server, 'genesis')
except resolwe.ResolweAuthException as e:
self.error(1, e.args[0])
else:
self.load_experiments()
self.handle_cache_button(True)
from orangecontrib.bio import resolwe
gen = resolwe.connect('*****@*****.**', 'anonymous', 'https://dictyexpress.research.bcm.edu', 'genesis')
experiments = gen.fetch_etc_objects()
for exp in experiments:
print("Experiment id: " + exp.id + " - " + str(exp))
from orangecontrib.bio import resolwe
gen = resolwe.connect('*****@*****.**', 'anonymous',
'https://dictyexpress.research.bcm.edu', 'genesis')
experiments = gen.fetch_etc_objects()
for exp in experiments:
print("Experiment id: " + exp.id + " - " + str(exp))
